Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Aire

Cell type

Cell type Class
Others
Cell type
Thymic epithelial cells
NA
NA

Attributes by original data submitter

Sample

source_name
Aire_C313Y_HET_WCE_rep1
strain
NOD X C57BL/6 F1
tissue
mTEChi
age
4-7 weeks
genotype
Aire +/C313Y

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Thymi were removed and enzymatically dissociated with Liberase TH and DNase. mTEChi were sorted and Aire binding sites in the genome were determined by ChIPseq. ChIPseq libraries were prepared for sequencing using a modified ChIPseq protocol (Blecher-Gonen et al., 2013, Bansal et al, 2017)

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
24262556
Reads aligned (%)
97.1
Duplicates removed (%)
45.8
Number of peaks
113 (qval < 1E-05)

mm9

Number of total reads
24262556
Reads aligned (%)
97.0
Duplicates removed (%)
46.4
Number of peaks
106 (qval < 1E-05)

Base call quality data from DBCLS SRA